RnoINT0028197 @ rn6
Intron Retention
Gene
ENSRNOG00000008031 | Cacna2d4
Description
calcium voltage-gated channel auxiliary subunit alpha2delta 4 [Source:RGD Symbol;Acc:1562038]
Coordinates
chr4:151369263-151373040:+
Coord C1 exon
chr4:151369263-151369390
Coord A exon
chr4:151369391-151372959
Coord C2 exon
chr4:151372960-151373040
Length
3569 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
AATAATTCTCATTTCCCCAGATA
3' ss Score
8.88
Exon sequences
Seq C1 exon
GAAGTTCCTGACACCTGAAGATGAAGCCAGTATTTTTACCATGGACCACTTCCCACTGTGGTATCGGCAGGCCTCTGAGCAGCCCCCAGGCAGCTTTGTCTTCAATCTCCGCTGGGCAGAGGGACCAG
Seq A exon
GTAACCTACACCTCTGTGCTCTCCCCAAGAGTGGAAAGTGGGGGCGGGGTGATATGGAAGAGAGGAAGACCCCAGGGCTCCCTCCCTGCCTTCCCTCCTGACACTGCAGCTTGAGACATGCGTGGTACAGCACACAGGATGTAGGACTGTGTGTTCTTAACCCCGGCTAGCACTCAAACTCTGGAATGGAACAAAAGAAAGAGATTTGACCCGAAAGCCAGCCAGTCCAACTCCTGGCCCACATTCCCAATGTGAGATCAGCTTTAAAACTCTACACCCTCAGAGGACTTATCCACATGGCTCTTCCAGTCTCCACGCCCCTCAGATTATCCAGAAGGCAGCTCCTAGGGCATAGGGGAAACAGCCAGGGCCAGCCAGCAGACCCCTACAAGCCCAGGCCACTGGGCAGGGAGAAGAAGTGACACCAAGCTGGGGACTCCAACTTCCAGCCCTGGTCACTCTGGAGGATGGCAGGAAACATCAAAACCTTCACTGGATTGCGAGGAAAATCAGACTGCTGAGAGTGCATGGGGCCTACAGCTCAGTGCACCCTGAAACTCTTAGTTACCTTTGAGGAAATGGTCTGGAGAGACTGGGCAGGGGGGAGTCCTTGTCCAGAATCCAGAAGTCTAAGCAACAAATATCCATCAGGTTGGCACAAGGGGGCTGAGTCAATGCAGAGGGACTAGAACTTGGACAGTACCCACTCACCCACTCATGGTTGAGTGAGAGAGGTGGGCAAGAGGTCAAGATGGTAAAGGCAGACATCTCAGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAAGTGAGGAAGGTTTTCAGGAAGTGGTAGCCTGTAGAGGAGCACCACTGTGTGTCTGTGTGCTTGCACACATAGGGACACACACACATACACACCATGGTGAACTGCCCTAGGACTGTCAGCTTCAGGAGCTCAGCAGCTCATGGCTTTCCAGGGTTGCCCCTCTAGGCCGAAGACAACAAGGGGGGACTTCTGTTCTATAACCCCTAAGCGTCCTTACGATCCACTGAGCCCGGCACTGCACCCTGTGTCACTCTCCACCCACACACCAGTTTGTGATGTGCTGGACAAACGTTTCCCCACGAAAACCCTGTGAGATGAGCACTGTTGTCCCCATCTCTCATCGTACATGGGGAGAGACGAAGGCTCAGAGACGCTCTGTGACTCGCTCAGGTTACACAGCACACACGAGAGCCTTTTACACAGCAAGCTATAGCCACGTCCACCTCATTAAAGTCCAGGTTATTTTGACACCCTAAATATAGGACAGGAGACAGAGAGAAAAGAGGTATTTTCATTCCCAGGACCCACAAAGAAGGTTCTCAAAGGCCAAGCTGAAGTTCTTCCCAGGTTGCACACCTAAGGCAGAGAGGCAGCTCCTCCCACACGAGGGGCTCCCAAAGGACAGACACCCACGGGCTCCAGAGATGCTGCCTGGGTGAGACCCGGGGCCCCGCCCAGGCAGGGTGACAGGCTCCCTCCTGCCTGCACTGTCACCAGAACTGCCTGCTGGCTGCTAGGGGAAGCTTTATGTGTCCACGAGGTAGGAGGGCAGGTGGGTGGGGAACGGAGCTGCCAGGAGAAGACAGGGAAGCTAGCAGCCCAAAAGGGGACTGCTGAGGAGGGAGGCGGGAGCGAGCTCCCTTCCTACGCCCCTGCACACTTGCTCAGCCTGAGCACATGCGTAAAGCCACGTGGACAATTCCGGGCCGCCCATCCTCCCCAAGAGAAAGAAAATAATTTCATTTTAATGGGGTCAGGGAGCCATGAAGGCAGAGGCAGAGAGGGGTAACCTCCAAGCTAACCTGAGGTCTAGTAGACAGTGCTGCCCGATTGTGTTACCTCTGTAGCCTGAGCCTATGCCACCTGTGGGTACACCTCAGTCTGCCAGCACCAAGGACATGCCTCATCCTGGACTTGTTCACACAGGCCCTGTGTCATGTGACCATTGACATTAAGGTTGAAATTCCCAAGGTCCCCAGAAATTAACTGAGTGATGCCCAAAAGTCGGTGCTAGCAGGAAGGCAGGCCGCAGAGCCAAGGACTCCTGCAGGGGTCCCTACATCCGTGTTTTATAGATGTTTCCAGAAACAAAGGGAAGGATCTGCTCTCCGTTTCTACTCTGGTTCCTTTGGCTTTGCCATGGCAAGTTTTCTGGAACAGAGAACAGCTCGGGGGGTCATGAGCTTCCACAATCTGAGCATAGATTCTTGAGACCTGTGGAAGATAGCGAGGTAACGGGAAACCATAAGAACGCTATCCATAGGAAACCGTGCTTGGCCCCAGTACAGAGGCACCACTGACCAGCAATCTCCACCAGGCGTTGAGAGCTGGTTATCACAGGCAGTATGACAGAACAGGACAGTACACAACCTTGGACTGATGAGAGGCCTTTGGGAAGCTGACTCAAGGACATGGACGGACAGAAGCCAGAGGCCAGACAGCAGCCTGCTGGAAAGCTGCTCTCCTGTGGAGCTCAAACCACCCTCTGATCTTGTTCCCAGGATGGCCTGGTTCTTCTAAAAGAAGTGAGAGGCAACCCAGATCTCCAGGGACCTGGCAGAAAGTTCTAGAAGGGCAGCAAATGAAAAAGGAAGTCGTCGTGGTGGTGAGCTGGGCACCACCAGCTAGGATCCATGAAGCCTCATAGATGTGTCAGCTATCATTCTGGCTGCTGGGGTGGCTCATCCGCCATATCTGGCTCGTGAGCAGGGCCATCACTGCCACTTTCTGTGACTCACAAAGGCAAGGCCGGGTCACCCACCACCCAGGCTGCCTGGGATGCCTACGACCTGCCCTTTAATATATGGTGCATCTATTGTCTGCTTGATAGTGTAGTCACCTGGTGAGAGGGCAGGGAAACCCAGCTTAAGGGTTGCCCTGGCCAGACTGGCCTGTGGCACAATCTTGATTGTTAAGTGGAGAAGGGCCTAGACTGCCATGTAAGGGGCCATCCCTGGACAGGTGGTCCGTCCTGAGCTTCATAGTCAGCCTTGCTCCATAATTCCTGCGTCCGGCTCCAGCCATGACTTCCTGCCCCAACCTCCCTCAGTGATGGACTATAAACACTTCCTCCCAAAGTTGCTTTTGGGTGTGGTGTTTATCACAGCAGCAGAAACACAAAGTGGGACAAAGCCCCTGATGGGTAAGACCCATGTGGGAGGACAGGCCATGACAGGGTCCTGCGGCGACAGCAAGCAGAACTAAGCAGCAGCAACAGGCAGGCGGGTTTGCTGCCTGGAGACGGAGCAAAGTCACGGTGCCGCTGTGATGCTGGCATCTCTTGGCTCAGGCAGGCAGAGGCTAAGGGATGATCTGACAGGTCCAGGTTTGTCCAGATGCAGGGACAGCAAGGGACCGTCAGGTGGTGGACAGCTGTAACCCATGACAGCCACCGGACCCTTCCTCCCACCTCACCAGGGATAGCTTATCCCCGCTTTCCTGTTTGCCCTGCGTTCCAAGAGATAGGCTCAACCCCCGTCCCACCTCTGCAGGCGCCGAGAATAACAATAATTCTCATTTCCCCAG
Seq C2 exon
ATAGCCCCGGCAAACCAGTGGCGGTAAGGGCCAGCACGGCAATAACTGTGACAGTGGACGGGAAGACGGCCATTGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008031:ENSRNOT00000010746:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.036
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]